|
| Status |
Public on Jan 31, 2019 |
| Title |
M_HighHead4 |
| Sample type |
SRA |
| |
|
| Source name |
Head
|
| Organism |
Drosophila melanogaster |
| Characteristics |
diet: High Fat Diet
gender: Male
tissue: Head
Stage: Adult
strain: w1118
|
| Treatment protocol |
For the high fat diet 5-7 day flies were kept on diet consisting of 20% coconut oil
|
| Growth protocol |
The flies were maintained on reguler corn meal
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The heads were collected from flies kept on liquid nitrogen with 10 seconds vortexing. The RNA for each biological replicate consist of ~100 heads. The RNA for the body was collected from 10 bodies.
Libraries were multiplexed and sequenced with 100 base pair (bp) paired end (PE100) Rapid Run to a depth of approximately 300 million reads per sample on an illumina HiSeq2500
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
RNA-seq data was mapped with OLego (v.1.1.5) and normalized by using TPM (transcripts per millions) analysis
Total number of reads mapped to a known transcript annotation was estimated using featureCounts version v1.5.0-p2
Expression levels for each transcript were determined by normalizing the counts returned by featureCounts using a custom Perl script
Genome_build: dm6
Supplementary_files_format_and_content: tab-delimited text files include count number reads per gene for each Sample
|
| |
|
| Submission date |
Dec 02, 2018 |
| Last update date |
Jan 31, 2019 |
| Contact name |
Debashis Sahoo |
| E-mail(s) |
dsahoo@ucsd.edu
|
| Phone |
6508624736
|
| Organization name |
UCSD
|
| Department |
Pediatrics
|
| Lab |
Boolean
|
| Street address |
9500 Gillman Drive
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL17275 |
| Series (1) |
| GSE123240 |
Gender-specific transcriptomic changes with high fat diet |
|
| Relations |
| BioSample |
SAMN10511395 |
| SRA |
SRX5087233 |
